› 4qa4

X-ray diffraction
1.98Å resolution

Crystal structure of H334R HDAC8 in complex with M344

Released:
DOI: 10.2210/pdb4qa4/pdb
PDB entry 4qa4 coloured by chain, front view.
PDB entry 4qa4 coloured by chain, side view.
PDB entry 4qa4 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Compromised structure and function of HDAC8 mutants identified in Cornelia de Lange Syndrome spectrum disorders.
Decroos C, Bowman CM, Moser JA, Christianson KE, Deardorff MA, Christianson DW
OpenAccess logo ACS Chem Biol 9 2157-64 (2014)
PMID: 25075551

Function and Biology Details

Reaction catalysed: 
Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-189815 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Histone deacetylase 8 Chain: A
Molecule details ›
Chain: A
Length: 389 amino acids
Theoretical weight: 43.25 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9BY41 (Residues: 1-377; Coverage: 100%)
Gene names: CDA07, HDAC8, HDACL1
Sequence domains: Histone deacetylase domain
Structure domains: Histone deacetylase domain

Ligands and Environments

4 bound ligands:
Ligand B3N 1 x B3N
Ligand ZN 1 x ZN
Ligand K 2 x K
Ligand GOL 3 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P3121
Unit cell:
a: 80.665Å b: 80.665Å c: 107.383Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.179 0.177 0.205
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

13 review citations

HDAC8: a multifaceted target for therapeutic interventions.
Chakrabarti et al. (2015)
12 more

1 mention without citation

Preparation of a new construct of human histone deacetylase 8 for the crystallization of enzyme-inhibitor complexes.
Porter et al. (2019)